Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 134 of 175
Found at i:41629581 original size:22 final size:23
Alignment explanation
Indices: 41629530--41629582 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
41629520 ACCAAAATGT
41629530 AAACTT-ACTAATAGTTAAATAA
1 AAACTTAACTAATAGTTAAATAA
**
41629552 AATTTTAACTAATAGTTAAA-AA
1 AAACTTAACTAATAGTTAAATAA
41629574 AAACTTAAC
1 AAACTTAAC
41629583 AATTCAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (23 bp):
AAACTTAACTAATAGTTAAATAA
Found at i:41629844 original size:21 final size:22
Alignment explanation
Indices: 41629795--41629845 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
41629785 ACCAAAATGT
41629795 AAACTT-ACTAATAGTTAAATA
1 AAACTTAACTAATAGTTAAATA
* *
41629816 AAATTTAATTAATAGTTAAA-A
1 AAACTTAACTAATAGTTAAATA
41629837 AAACTTAAC
1 AAACTTAAC
41629846 AGTTCAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (22 bp):
AAACTTAACTAATAGTTAAATA
Found at i:41629934 original size:263 final size:265
Alignment explanation
Indices: 41629442--41629972 Score: 922
Period size: 263 Copynumber: 2.0 Consensus size: 265
41629432 AAGCTAAGGT
*
41629442 TGTTTCAATTTTAGGATTAAACCAAGCCTGTGAGTCAAATCGAGATATACATGCAATGTAGGAGA
1 TGTTTCAATTTTAGGATTAAACCAAGCCTGTGAGTCAAATCGAGATATACATGCAATGTAGAAGA
41629507 GCAAAGGTGAGTGACCAAAATGTAAACTTACTAATAGTTAAATAAAATTTTAACTAATAGTTAAA
66 GCAAAGGTGAGTGACCAAAATGTAAACTTACTAATAGTTAAATAAAATTTTAACTAATAGTTAAA
*
41629572 AAAAACTTAACAATTCAATGACTTAAATAAAAGCTTTTGAATAGTTCAATAGCTTAAGTGAAAAA
131 AAAAACTTAACAATTCAATGACTTAAATAAAAGCTTTCGAATAGTTCAATAGCTTAAGTGAAAAA
41629637 TTTCAATTAGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACCCGATTTTTAGTGGTACTA
196 TTTCAATTAGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACCCGATTTTTAGTGGTACTA
41629702 GAAAA
261 GAAAA
* * * * *
41629707 TGTTTCAATTTTAGGATTAAACCGAGCTTGTGAGTCAAGTCTAGATATACATGCTATGTAGAAGA
1 TGTTTCAATTTTAGGATTAAACCAAGCCTGTGAGTCAAATCGAGATATACATGCAATGTAGAAGA
* *
41629772 GCAAAGGTGATTGACCAAAATGTAAACTTACTAATAGTTAAATAAAA-TTTAATTAATAGTT-AA
66 GCAAAGGTGAGTGACCAAAATGTAAACTTACTAATAGTTAAATAAAATTTTAACTAATAGTTAAA
* * *
41629835 AAAAACTTAACAGTTCAATGATTTAAATAAAAGCTTTCGAATAGTTCAATAGCTTAAGTGAAAAT
131 AAAAACTTAACAATTCAATGACTTAAATAAAAGCTTTCGAATAGTTCAATAGCTTAAGTGAAAAA
* *
41629900 TTTCAATTGGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACTCGATTTTTAGTGGTACTA
196 TTTCAATTAGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACCCGATTTTTAGTGGTACTA
41629965 GAAAA
261 GAAAA
41629970 TGT
1 TGT
41629973 GGTTTCAAAA
Statistics
Matches: 252, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
263 134 0.53
264 13 0.05
265 105 0.42
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (265 bp):
TGTTTCAATTTTAGGATTAAACCAAGCCTGTGAGTCAAATCGAGATATACATGCAATGTAGAAGA
GCAAAGGTGAGTGACCAAAATGTAAACTTACTAATAGTTAAATAAAATTTTAACTAATAGTTAAA
AAAAACTTAACAATTCAATGACTTAAATAAAAGCTTTCGAATAGTTCAATAGCTTAAGTGAAAAA
TTTCAATTAGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACCCGATTTTTAGTGGTACTA
GAAAA
Found at i:41633366 original size:26 final size:25
Alignment explanation
Indices: 41633332--41633390 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
41633322 AGGTAAATAG
* *
41633332 AAATATAATCAAATATAACAATAAT
1 AAATATAATAAAAAATAACAATAAT
* *
41633357 AAATAGTAATAAAAAATAATAATAGT
1 AAATA-TAATAAAAAATAACAATAAT
41633383 AAAT-TAAT
1 AAATATAAT
41633391 TAATAGCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.14
25 5 0.17
26 20 0.69
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (25 bp):
AAATATAATAAAAAATAACAATAAT
Found at i:41635881 original size:25 final size:27
Alignment explanation
Indices: 41635838--41635898 Score: 83
Period size: 24 Copynumber: 2.4 Consensus size: 27
41635828 CATATATAAT
*
41635838 ATATATAATTTTTAAAAAAATT-TAAA
1 ATATATAATTTTTTAAAAAATTCTAAA
*
41635864 A-A-ATAATTTTTTATAAAATTCTAAA
1 ATATATAATTTTTTAAAAAATTCTAAA
41635889 ATATATAATT
1 ATATATAATT
41635899 ATAAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 16 0.53
25 6 0.20
26 2 0.07
27 6 0.20
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
ATATATAATTTTTTAAAAAATTCTAAA
Found at i:41635936 original size:19 final size:19
Alignment explanation
Indices: 41635908--41635957 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
41635898 TATAAATTTT
*
41635908 TAAAAGTGAAAATAATATA
1 TAAAATTGAAAATAATATA
*
41635927 TAAAATTGAAAAATGATATA
1 TAAAATTG-AAAATAATATA
41635947 -AAAATT-AAAAT
1 TAAAATTGAAAAT
41635958 TTTGAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.18
19 13 0.46
20 10 0.36
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (19 bp):
TAAAATTGAAAATAATATA
Found at i:41635956 original size:18 final size:20
Alignment explanation
Indices: 41635916--41635956 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
41635906 TTTAAAAGTG
41635916 AAAATAATATATAAAATTGA
1 AAAATAATATATAAAATTGA
*
41635936 AAAATGATATA-AAAATT-A
1 AAAATAATATATAAAATTGA
41635954 AAA
1 AAA
41635957 TTTTGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 6 0.30
20 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAATAATATATAAAATTGA
Found at i:41636005 original size:30 final size:33
Alignment explanation
Indices: 41635951--41636020 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
41635941 GATATAAAAA
*
41635951 TTAAAATTTTGAAAATATATTATTTT-GACTTT
1 TTAAAATTTTGAAAATATATTATTTTAGAATTT
41635983 TTAAAA-TTT-AAAATGATA-TATTTTAGAATTT
1 TTAAAATTTTGAAAAT-ATATTATTTTAGAATTT
41636014 TATAAAA
1 T-TAAAA
41636021 AATTTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
30 11 0.32
31 12 0.35
32 11 0.32
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (33 bp):
TTAAAATTTTGAAAATATATTATTTTAGAATTT
Found at i:41636802 original size:19 final size:20
Alignment explanation
Indices: 41636780--41636819 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
41636770 TAAAAAATTT
*
41636780 AATT-TTTTTTATTTTCAAA
1 AATTCTTTTTCATTTTCAAA
*
41636799 AATTCTTTTTCATTTTTAAA
1 AATTCTTTTTCATTTTCAAA
41636819 A
1 A
41636820 GGTTTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTCTTTTTCATTTTCAAA
Found at i:41649977 original size:15 final size:15
Alignment explanation
Indices: 41649959--41649987 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41649949 ATATTGATAT
41649959 TATTTAATTTTATAA
1 TATTTAATTTTATAA
41649974 TATTTAATTTTATA
1 TATTTAATTTTATA
41649988 TTTTAACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTAATTTTATAA
Found at i:41650370 original size:14 final size:13
Alignment explanation
Indices: 41650335--41650375 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
41650325 TAAAAATCAT
*
41650335 AAAAATTATAAAC
1 AAAAATTATAAAA
*
41650348 AAAATTTATAAAA
1 AAAAATTATAAAA
41650361 AAAAAGTTATAAAA
1 AAAAA-TTATAAAA
41650375 A
1 A
41650376 TTTTAAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAAATTATAAAA
Found at i:41659470 original size:35 final size:35
Alignment explanation
Indices: 41659415--41659499 Score: 125
Period size: 35 Copynumber: 2.4 Consensus size: 35
41659405 GCCCATCCCT
*
41659415 CCAAAACACACCAAATGCTCACAAGAGCTAGTCCAA
1 CCAAAACACGCC-AATGCTCACAAGAGCTAGTCCAA
* * *
41659451 CCGAAACATGCCAATGCTCATAAGAGCTAGTCCAA
1 CCAAAACACGCCAATGCTCACAAGAGCTAGTCCAA
41659486 CCAAAACACGCCAA
1 CCAAAACACGCCAA
41659500 ACAGAGAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 34 0.79
36 9 0.21
ACGTcount: A:0.42, C:0.33, G:0.13, T:0.12
Consensus pattern (35 bp):
CCAAAACACGCCAATGCTCACAAGAGCTAGTCCAA
Found at i:41662831 original size:51 final size:53
Alignment explanation
Indices: 41662776--41662893 Score: 136
Period size: 52 Copynumber: 2.3 Consensus size: 53
41662766 TATAAAACTT
** *
41662776 ATATATATATATAAAATACA-TAATGCATTTATGAAAACAAGGAAA-ATATAA
1 ATATATATATATAAAATACATTAATGCATTTACAAAAAAAAGGAAATATATAA
* * * *
41662827 ATATATACATATAAAATATATTCATGCATTTACAAAAAAAATGAAATATATAA
1 ATATATATATATAAAATACATTAATGCATTTACAAAAAAAAGGAAATATATAA
*
41662880 GTATA-ATATA-AAAA
1 ATATATATATATAAAA
41662894 CGTGGAAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 22 0.39
52 24 0.43
53 10 0.18
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (53 bp):
ATATATATATATAAAATACATTAATGCATTTACAAAAAAAAGGAAATATATAA
Found at i:41663161 original size:3 final size:3
Alignment explanation
Indices: 41663153--41663191 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
41663143 ATATGTAGGT
41663153 ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
41663192 CAAAATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:41663174 original size:17 final size:17
Alignment explanation
Indices: 41663152--41663187 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
41663142 TATATGTAGG
41663152 TATAATAATAATAATAA
1 TATAATAATAATAATAA
41663169 TATAATAATAATAATAA
1 TATAATAATAATAATAA
41663186 TA
1 TA
41663188 ATAACAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAATAATAATAATAA
Found at i:41663178 original size:20 final size:20
Alignment explanation
Indices: 41663153--41663190 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
41663143 ATATGTAGGT
41663153 ATAATAATAATAATAATATA
1 ATAATAATAATAATAATATA
41663173 ATAATAATAATAATAATA
1 ATAATAATAATAATAATA
41663191 ACAAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATAATAATAATAATATA
Found at i:41663206 original size:9 final size:10
Alignment explanation
Indices: 41663153--41663203 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 10
41663143 ATATGTAGGT
41663153 ATAATAA-TA
1 ATAATAATTA
41663162 ATAATAATATA
1 ATAATAAT-TA
41663173 ATAATAA-TA
1 ATAATAATTA
41663182 ATAATAA-TA
1 ATAATAATTA
*
41663191 ACAA-AATTA
1 ATAATAATTA
41663200 ATAA
1 ATAA
41663204 AATAGACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 2 0.05
9 26 0.70
11 9 0.24
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (10 bp):
ATAATAATTA
Found at i:41663451 original size:19 final size:21
Alignment explanation
Indices: 41663413--41663451 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
41663403 CCTTTTTTAA
*
41663413 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
41663434 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
41663452 AAGACAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:41663651 original size:23 final size:22
Alignment explanation
Indices: 41663608--41663665 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
41663598 AAAGGGTATC
* *
41663608 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
41663629 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
41663652 TACATATCATATCT
1 TACAAATCATATCT
41663666 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:41663668 original size:19 final size:19
Alignment explanation
Indices: 41663621--41663699 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
41663611 AAATTAAATC
*
41663621 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
41663641 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
41663663 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
41663684 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
41663700 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:41663681 original size:21 final size:21
Alignment explanation
Indices: 41663655--41663698 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
41663645 CTAAGATTAC
41663655 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41663676 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41663697 AT
1 AT
41663699 CCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:41664181 original size:44 final size:44
Alignment explanation
Indices: 41664127--41664234 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 44
41664117 GTTCTGCTCT
* * *
41664127 CTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCGCTTCA
1 CTGCAACTTCAGGGAGATAAGAT-CATAGGCTTTAATCCGCTCCA
* * * *
41664171 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCATAGGCTTTAATCCGCTCCA
41664215 CTGCAACTTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAA
41664235 AATTTGCCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATCATAGGCTTTAATCCGCTCCA
Found at i:41664234 original size:128 final size:128
Alignment explanation
Indices: 41663984--41664234 Score: 299
Period size: 128 Copynumber: 2.0 Consensus size: 128
41663974 GATGAATTTG
* * * *
41663984 ATGCGATCTGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCGCTACAA
1 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACAA
* * * * *
41664049 CTTTAGGGAGATAGGATTTGTTTATTTAGTCTGCTCCACTGTAACTTTAGAGAGATAAGGCTAA
66 CTTCAGGGAGATAGGATTTG-TGATTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGGCTAA
* ** * * * *
41664113 ATGCGTTCTGCTCT-CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTTCACTGCAA
1 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACAA
* *
41664177 CTTCAGGGAGATAGGATTATCG-GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
66 CTTCAGGGAGATAGGATT-T-GTGATTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
41664235 AATTTGCCAT
Statistics
Matches: 102, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
128 87 0.85
129 14 0.14
130 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (128 bp):
ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACAA
CTTCAGGGAGATAGGATTTGTGATTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGGCTAA
Found at i:41664591 original size:44 final size:43
Alignment explanation
Indices: 41664541--41664916 Score: 444
Period size: 44 Copynumber: 8.7 Consensus size: 43
41664531 GCTATTTTCC
*
41664541 ACCTATTCCACTGCTGCTCAGGGAGATAAGG-TTCACGATCTTCA
1 ACCTATTCCACTGCTGC-CAGGGAGAT-AGGATTCACAATCTTCA
* *
41664585 ACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTATAATCTTCA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTC-ACAATCTTCA
* * * * *
41664629 ATCTATTCCACTACTGCCCAAGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTCA
*
41664673 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTCA
41664717 ACCTATTCCACTGCTGTCCAGGGAGATAGGATT--C--T-TT-A
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTCA
** * * *
41664755 ATATATTCCACTGCTACCTAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGCC-AGGGAGATAGGATTCACAATCTTCA
*
41664799 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTCA
* *
41664843 ACCTATTCCATTGCTGTCCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTCA
41664887 ACCTATTCCACTGCTGACCAGGGAGATAGG
1 ACCTATTCCACTGCTG-CCAGGGAGATAGG
41664917 GCTGGAGTCA
Statistics
Matches: 287, Mismatches: 33, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
37 2 0.01
38 27 0.09
39 2 0.01
40 2 0.01
42 2 0.01
43 6 0.02
44 242 0.84
45 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
ACCTATTCCACTGCTGCCAGGGAGATAGGATTCACAATCTTCA
Found at i:41664820 original size:126 final size:126
Alignment explanation
Indices: 41664541--41664876 Score: 496
Period size: 126 Copynumber: 2.6 Consensus size: 126
41664531 GCTATTTTCC
* * *
41664541 ACCTATTCCACTGCTG-CTCAGGGAGATAAGG-TTCACGATCTTCAACCTATTCCACTGCTGACC
1 ACCTATTCCACTGCTGAC-CAGGGAGAT-AGGATTCACAATCTTTAACCTATTCCACTGCTGTCC
* *
41664604 AGGGAGATAGGACCTATAATCTTCAATCTATTCCACTACTGCCCAAGGAGATAGAATTCTCAATC
64 AGGGAGATAGG----AT--TCTTCAATATATTCCACTACTACCCAAGGAGATAGAATTCTCAATC
41664669 TTCA
123 TTCA
41664673 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
* * * *
41664738 GGAGATAGGATTCTTTAATATATTCCACTGCTACCTAGGGAGATAGAATTCTCAATCTTCA
66 GGAGATAGGATTCTTCAATATATTCCACTACTACCCAAGGAGATAGAATTCTCAATCTTCA
*
41664799 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCATTGCTGTCCAG
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
41664864 GGAGATAGGATTC
66 GGAGATAGGATTC
41664877 ACAATCTTTA
Statistics
Matches: 192, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
126 121 0.63
128 2 0.01
131 3 0.02
132 65 0.34
133 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (126 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
GGAGATAGGATTCTTCAATATATTCCACTACTACCCAAGGAGATAGAATTCTCAATCTTCA
Found at i:41664840 original size:170 final size:170
Alignment explanation
Indices: 41664588--41664916 Score: 509
Period size: 170 Copynumber: 1.9 Consensus size: 170
41664578 ATCTTCAACC
* * * *
41664588 TATTCCACTGCTGACCAGGGAGATAGGACCTATAATCTTCAATCTATTCCACTACTGCCCAAGGA
1 TATTCCACTGCTGACCAGGGAGATAGAACCTACAATCTTCAACCTATTCCACTACTGACCAAGGA
*
41664653 GATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAA
66 GATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAA
*
41664718 CCTATTCCACTGCTGTCCAGGGAGATAGGATTCTTTAATA
131 CCTATTCCACTGCTGACCAGGGAGATAGGATTCTTTAATA
* * *
41664758 TATTCCACTGCT-ACCTAGGGAGATAGAATTCT-CAATCTTCAACCTATTCCACTGCTGACCAGG
1 TATTCCACTGCTGACC-AGGGAGATAGAA-CCTACAATCTTCAACCTATTCCACTACTGACCAAG
* * * *
41664821 GAGATAGGATTCACAATCTTTAACCTATTCCATTGCTGTCCAGGGAGATAGGATTCACAATCTTT
64 GAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT
41664886 AACCTATTCCACTGCTGACCAGGGAGATAGG
129 AACCTATTCCACTGCTGACCAGGGAGATAGG
41664917 GCTGGAGTCA
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
169 3 0.02
170 139 0.97
171 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (170 bp):
TATTCCACTGCTGACCAGGGAGATAGAACCTACAATCTTCAACCTATTCCACTACTGACCAAGGA
GATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAA
CCTATTCCACTGCTGACCAGGGAGATAGGATTCTTTAATA
Found at i:41664975 original size:88 final size:88
Alignment explanation
Indices: 41664916--41665317 Score: 534
Period size: 88 Copynumber: 4.6 Consensus size: 88
41664906 AGGGAGATAG
* * * *
41664916 GGCTGGAGTCATCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * * *
41664981 TTCGCTGCAACCCAGGGAGGTAA
66 TCCACTGCAACCTAGGGAGGCAA
* * ** * *
41665004 GGCTGGTGTCTTTGATCTGCTTCACTGTTAGTGCAGGAAGGCAATATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
41665069 TCCACTGCAACCTAGGGAGGCAA
66 TCCACTGCAACCTAGGGAGGCAA
* * * *
41665092 GGCTGGTGACTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGTAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
41665157 TCCGCTGCAACCTAGGGAGGCAA
66 TCCACTGCAACCTAGGGAGGCAA
* *
41665180 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTTC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
41665245 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCTAGGGAGGCAA
* * * * * * *
41665268 GGCTGGTGACTTCGATCTGCTTTGCTGCCAGTACAAGAAGACAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
41665318 TTATCTTCAC
Statistics
Matches: 279, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 279 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCACTGCAACCTAGGGAGGCAA
Found at i:41665266 original size:44 final size:44
Alignment explanation
Indices: 41664949--41665268 Score: 112
Period size: 44 Copynumber: 7.3 Consensus size: 44
41664939 GCTGTCGGTG
* * *
41664949 CAGGAAGGCAAGATCTGCTATTTTTAACTTGCTTCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
* * * * * * * * * * ***
41664993 CAGGGAGGTAAG-GCTGGTGTCTTT-GATCTGCTTCACTGTTAGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAG-CCTGCTCCGCTG-CAACC
* *
41665037 CAGGAAGGCAATATCTGCTATTTTTAGCCTGCTCCACTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
* * * * * ** * * * ****
41665081 TAGGGAGGCAAG-GCTGGTGACTTCGA-TCTGCTTCGTTGTCGGTG
1 CAGGAAGGCAAGATCTGCT-ATTTTTAGCCTGCTCCGCTG-CAACC
*
41665125 CAGGAAGGTAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
* * * * * * * * * ****
41665169 TAGGGAGGCAAG-GCTGGT-GTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAG-CCTGCTCCGCTG-CAACC
*
41665213 CAGGAAGGCAAGATCTGCTATTTTTAGCCTTCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
*
41665257 CAGGGAGGCAAG
1 CAGGAAGGCAAG
41665269 GCTGGTGACT
Statistics
Matches: 177, Mismatches: 87, Indels: 24
0.61 0.30 0.08
Matches are distributed among these distances:
42 4 0.02
43 43 0.24
44 81 0.46
45 44 0.25
46 5 0.03
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACC
Found at i:41671878 original size:12 final size:14
Alignment explanation
Indices: 41671847--41671883 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
41671837 TGTAGGTATA
41671847 ATAATAATATATAAT
1 ATAATAATA-ATAAT
41671862 ATAATAATAA-AAT
1 ATAATAATAATAAT
41671875 -TAATAATAA
1 ATAATAATAA
41671884 CAAAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.41
13 3 0.14
14 1 0.05
15 9 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:41671883 original size:18 final size:18
Alignment explanation
Indices: 41671843--41671899 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 18
41671833 TATATGTAGG
*
41671843 TATAATAATAATATATAA
1 TATAATAATAAAATATAA
41671861 TATAATAATAAAAT-T-A
1 TATAATAATAAAATATAA
*
41671877 -ATAATAACAAAAT-TAA
1 TATAATAATAAAATATAA
*
41671893 TAAAATA
1 TATAATA
41671900 GACTAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 13 0.38
16 2 0.06
17 6 0.18
18 13 0.38
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TATAATAATAAAATATAA
Found at i:41672143 original size:19 final size:21
Alignment explanation
Indices: 41672105--41672143 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
41672095 CCTTTTTTAA
*
41672105 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
41672126 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
41672144 AAAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:41672344 original size:23 final size:22
Alignment explanation
Indices: 41672301--41672358 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
41672291 AAAGGGTATC
* *
41672301 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
41672322 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
41672345 TACATATCATATCT
1 TACAAATCATATCT
41672359 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:41672361 original size:19 final size:19
Alignment explanation
Indices: 41672314--41672390 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
41672304 AAATTAAATC
*
41672314 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
41672334 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
41672356 TCTAAGATTGCATATCATG
1 TCTAAGATTACATATCATA
*
41672375 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
41672391 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
22 7 0.14
23 11 0.22
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:41675547 original size:9 final size:9
Alignment explanation
Indices: 41675535--41675583 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
41675525 AATATAGTGG
41675535 TTATAATTA
1 TTATAATTA
41675544 TTATAATTA
1 TTATAATTA
*
41675553 TTATTATTA
1 TTATAATTA
*
41675562 TTATCATTA
1 TTATAATTA
41675571 TTAT-ATTA
1 TTATAATTA
41675579 TTATA
1 TTATA
41675584 CCTACATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 8 0.22
9 29 0.78
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATAATTA
Found at i:41675555 original size:3 final size:3
Alignment explanation
Indices: 41675535--41675582 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
41675525 AATATAGTGG
* * *
41675535 TTA TAA TTA TTA TAA TTA TTA TTA TTA TTA TCA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41675582 T
1 T
41675583 ACCTACATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:41675799 original size:34 final size:34
Alignment explanation
Indices: 41675760--41675827 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
41675750 ATAATTTGTA
41675760 TATGTTTATACATTTTTATAATATGTACATATAT
1 TATGTTTATACATTTTTATAATATGTACATATAT
41675794 TATGTTTATACATTTTTATAATATGTACATATAT
1 TATGTTTATACATTTTTATAATATGTACATATAT
41675828 ATTTATACTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (34 bp):
TATGTTTATACATTTTTATAATATGTACATATAT
Found at i:41680536 original size:6 final size:7
Alignment explanation
Indices: 41680524--41680572 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
41680514 AAAGATGTGA
41680524 AAAAATG
1 AAAAATG
41680531 -AAAATG
1 AAAAATG
41680537 AAAAATG
1 AAAAATG
41680544 AAAAATG
1 AAAAATG
41680551 AAAAATGG
1 AAAAAT-G
41680559 AAAAA-G
1 AAAAATG
41680565 TAAAAATG
1 -AAAAATG
41680573 GAGAAGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 7 0.18
7 24 0.63
8 7 0.18
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:41680574 original size:15 final size:14
Alignment explanation
Indices: 41680524--41680572 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
41680514 AAAGATGTGA
*
41680524 AAAAATGAAAATG-
1 AAAAATGAAAAAGT
41680537 AAAAATGAAAAA-T
1 AAAAATGAAAAAGT
41680550 GAAAAATGGAAAAAGT
1 -AAAAAT-GAAAAAGT
41680566 AAAAATG
1 AAAAATG
41680573 GAGAAGCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.35
14 7 0.23
15 12 0.39
16 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAAGT
Found at i:41682078 original size:100 final size:100
Alignment explanation
Indices: 41681957--41682819 Score: 1086
Period size: 100 Copynumber: 8.6 Consensus size: 100
41681947 CATTACTGTG
* * * * *
41681957 AAAAAAATTGAAGTCACAACGGCAGATCTTATTTCCCTGACGGTGTAGTGGAATAGATTGAAGCT
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTGCAGTGGAACAGATTGAAGCT
* * *
41682022 ACGACGGTGGATCCGGTTTCCCCGACATTGTAATT
66 ACGACGGCGGATCTGGTTTCCCCGACATTGCAATT
* * ** *
41682057 AAAAAGATTGAAGCCATAACGGTGGATCTTATTTCCCTGGTGGTGCAGTGGAACAAATTGAAGCT
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTGCAGTGGAACAGATTGAAGCT
* *
41682122 ACGACGGCGGATCTGGTTTCCCCAACATTGTAATT
66 ACGACGGCGGATCTGGTTTCCCCGACATTGCAATT
** * * * * *
41682157 AAAAAGATTGAAGCCACAACGGCAAATCTTATTTCTCTGGCAGTACAGTGGAGCAGATTGAAGCT
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTGCAGTGGAACAGATTGAAGCT
*
41682222 GCGACGGCGGATCTGGTTTCCCCGACATTGCAATT
66 ACGACGGCGGATCTGGTTTCCCCGACATTGCAATT
* * * * *
41682257 AAAAAGATTGAAGCCACAACGGCAGATCTTATTTCCCTGGCGGTGCAGTGTAGCAAATTGAAGCT
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTGCAGTGGAACAGATTGAAGCT
*
41682322 ACGACGGAGGATCTGGTTTCCCCGACATTGCAATT
66 ACGACGGCGGATCTGGTTTCCCCGACATTGCAATT
** * * * * *
41682357 AAAAAGATTGAAGCCACAACGATGGATCTTACTTCTCTGACGGTGTAGTAGAATAGATTGAAG-T
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTGCAGTGGAACAGATTGAAGCT
* ** *
41682421 -CGTAACGGCGAATCTTATTTCCCCGACATTGTAATT
66 ACG--ACGGCGGATCTGGTTTCCCCGACATTGCAATT
* * * * **
41682457 AAAAAGATTAAAGCCATAACAGTGGATCTTATTTCCCTGGTGGTGCAGTGGAACAGATTGAAGCT
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTGCAGTGGAACAGATTGAAGCT
*
41682522 ACGACGGCTGATCTGGTTTCCCCGACATTGCAATT
66 ACGACGGCGGATCTGGTTTCCCCGACATTGCAATT
* *
41682557 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTTCAGTGGAGCAGATTGAAGCT
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTGCAGTGGAACAGATTGAAGCT
* * *
41682622 ACAACGGAGGATCTGGTTTTCCCGACATTGCAATT
66 ACGACGGCGGATCTGGTTTCCCCGACATTGCAATT
* * *
41682657 AAAAAGATTGAAGCCACAACGGTGGATCTTATTTCCCT-AGCGGTGCAGTAGAGCAGATTGAAGC
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGA-CGGTGCAGTGGAACAGATTGAAGC
* * *
41682721 TACAAAGGCGGATATGGTTTCCCCGACATTGCAATT
65 TACGACGGCGGATCTGGTTTCCCCGACATTGCAATT
* * * * * *
41682757 CAAAAGATTGAAGCCACAATGACGGATCTTACTTCCCT-AGCGGTGTAGTGGAATAGATTGAAG
1 AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGA-CGGTGCAGTGGAACAGATTGAAG
41682820 TCGTAATATC
Statistics
Matches: 663, Mismatches: 95, Indels: 10
0.86 0.12 0.01
Matches are distributed among these distances:
98 2 0.00
99 2 0.00
100 656 0.99
101 1 0.00
102 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (100 bp):
AAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTGCAGTGGAACAGATTGAAGCT
ACGACGGCGGATCTGGTTTCCCCGACATTGCAATT
Found at i:41684366 original size:3 final size:3
Alignment explanation
Indices: 41684353--41684391 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
41684343 AATATAGTGG
* *
41684353 TTA TAA TTA TTA TTA TTA TCA TTA TTA -TA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
41684392 ACTTACATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:41696527 original size:4 final size:4
Alignment explanation
Indices: 41696518--41696549 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
41696508 GTTAAGGTGC
41696518 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
41696550 TGAAATCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:41699086 original size:16 final size:16
Alignment explanation
Indices: 41699053--41699085 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
41699043 ACAATATAAT
41699053 AATAATATAATAGCAA
1 AATAATATAATAGCAA
41699069 AATAATATAATA-CAA
1 AATAATATAATAGCAA
41699084 AA
1 AA
41699086 AAATTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (16 bp):
AATAATATAATAGCAA
Found at i:41702001 original size:22 final size:20
Alignment explanation
Indices: 41701965--41702023 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
41701955 GGCCCGGCCC
41701965 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
41701987 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
41702008 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
41702024 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:41702025 original size:11 final size:11
Alignment explanation
Indices: 41702005--41702060 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 11
41701995 TAAAAATTAA
41702005 AAAAAGTATTTT
1 AAAAA-TATTTT
41702017 AAAAATATTTT
1 AAAAATATTTT
41702028 --AAA-A--TT
1 AAAAATATTTT
*
41702034 AAAAAAATTTT
1 AAAAATATTTT
41702045 AAAAAGTATTTT
1 AAAAA-TATTTT
41702057 AAAA
1 AAAA
41702061 TTAAAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
6 2 0.05
8 4 0.11
9 4 0.11
11 13 0.35
12 14 0.38
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:41702037 original size:17 final size:17
Alignment explanation
Indices: 41702015--41702048 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41702005 AAAAAGTATT
*
41702015 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
41702032 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
41702049 AGTATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:41702049 original size:29 final size:31
Alignment explanation
Indices: 41701990--41702068 Score: 117
Period size: 29 Copynumber: 2.6 Consensus size: 31
41701980 ACCAAAAATT
*
41701990 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAAAGTATTTAAAAAA
*
41702022 TATTTTAAAATTAAAAAAA-T-TTTAAAAAG
1 TATTTTAAAATTAAAAAAAGTATTTAAAAAA
41702051 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
41702069 TAAAAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 25 0.56
30 1 0.02
31 13 0.29
32 6 0.13
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (31 bp):
TATTTTAAAATTAAAAAAAGTATTTAAAAAA
Found at i:41702049 original size:40 final size:39
Alignment explanation
Indices: 41701996--41702118 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 39
41701986 AATTTATTTT
*
41701996 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTAAAAAAGTATTTT-AAAATATTTTAAAATTAA
*
41702036 AAAAATTTTAAAAAGTATTTT-AAA-A--TT-AAA--AA
1 AAAAATTTAAAAAAGTATTTTAAAATATTTTAAAATTAA
*
41702068 ATAAA---AAAAAAGTATTTTACAAATATTTTAAAATTAA
1 AAAAATTTAAAAAAGTATTTTA-AAATATTTTAAAATTAA
*
41702105 AAAAAATTAAAAAA
1 AAAAATTTAAAAAA
41702119 ATAAATATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 22
0.71 0.05 0.23
Matches are distributed among these distances:
29 12 0.18
31 3 0.04
32 7 0.10
34 5 0.07
35 5 0.07
37 7 0.10
38 3 0.04
40 25 0.37
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (39 bp):
AAAAATTTAAAAAAGTATTTTAAAATATTTTAAAATTAA
Found at i:41702109 original size:41 final size:42
Alignment explanation
Indices: 41702040--41702119 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
41702030 AATTAAAAAA
41702040 ATTTTAAAAAGTATTTTAAAATT-AAAAAATAAAAAAAAAGT
1 ATTTTAAAAAGTATTTTAAAATTAAAAAAATAAAAAAAAAGT
* *
41702081 ATTTTACAAA-TATTTTAAAATTAAAAAAAATTAAAAAAA
1 ATTTTAAAAAGTATTTTAAAATT-AAAAAAATAAAAAAAA
41702120 TAAATATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 12 0.34
41 9 0.26
42 14 0.40
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (42 bp):
ATTTTAAAAAGTATTTTAAAATTAAAAAAATAAAAAAAAAGT
Found at i:41705127 original size:21 final size:21
Alignment explanation
Indices: 41705101--41705156 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
41705091 CTAACACCCA
41705101 CAACCACAACCCCCGCCAGAG
1 CAACCACAACCCCCGCCAGAG
** **
41705122 CAACCACAACCCTTGCTGGAG
1 CAACCACAACCCCCGCCAGAG
41705143 CAACCACAACCCCC
1 CAACCACAACCCCC
41705157 ATCGAAAGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.50, G:0.12, T:0.05
Consensus pattern (21 bp):
CAACCACAACCCCCGCCAGAG
Found at i:41705344 original size:22 final size:24
Alignment explanation
Indices: 41705282--41705343 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 24
41705272 TATATTATTT
*
41705282 TATTTAATAAAATAAGTTGTTTTTAA
1 TATTTAAT--AATAAATTGTTTTTAA
41705308 TATTTCAATAATAAATTGTTTTTATA
1 TATTT-AATAATAAATTGTTTTTA-A
*
41705334 TTTTTAATAA
1 TATTTAATAA
41705344 AATAGTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 19 0.59
26 10 0.31
27 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (24 bp):
TATTTAATAATAAATTGTTTTTAA
Found at i:41708623 original size:125 final size:124
Alignment explanation
Indices: 41708401--41708633 Score: 290
Period size: 125 Copynumber: 1.9 Consensus size: 124
41708391 ACTACAGTAG
* ** *
41708401 AAAAAGAACGTCCACGTGGGAGTTTTTTCATCAATTTTGCTAACAGTGCATCCTGCTTGAAGCGT
1 AAAAAGAACGTCCACGTGGAAACTTTTTCATCAATTTTGCTAACAGTGCATCCTACTTGAAGCGT
41708466 TTTTAACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCATGAATTATTATGA
66 TTTTAACACCATTTGTTCAGAACCGTCTTCTCAAAATT-TTTTTTCATGAATTATTATGA
* * * * *
41708526 AAAAAGAGCGTCCACGTGGAAACTTTTTCAGT-AATTTTGTTGATATTGCATCCTACTTGAAGCG
1 AAAAAGAACGTCCACGTGGAAACTTTTTCA-TCAATTTTGCTAACAGTGCATCCTACTTGAAGCG
* **** *
41708590 TTTTTTATTTTATCTT-TTCAGAATCGTCTTCTCAAAATTTTTTT
65 TTTTTAACACCAT-TTGTTCAGAACCGTCTTCTCAAAATTTTTTT
41708634 AAGAACTACT
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
124 5 0.05
125 83 0.91
126 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (124 bp):
AAAAAGAACGTCCACGTGGAAACTTTTTCATCAATTTTGCTAACAGTGCATCCTACTTGAAGCGT
TTTTAACACCATTTGTTCAGAACCGTCTTCTCAAAATTTTTTTTCATGAATTATTATGA
Found at i:41708770 original size:34 final size:34
Alignment explanation
Indices: 41708723--41708787 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
41708713 TTTTTAAAAA
*
41708723 CTAAACCATAATTTAATTAATTT-TCTTAAAAGCT
1 CTAAACCACAATTTAATTAATTTAT-TTAAAAGCT
*
41708757 CTAAACCCCAATTTAATTAATTTATTTAAAA
1 CTAAACCACAATTTAATTAATTTATTTAAAA
41708788 CCCCAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.40
Consensus pattern (34 bp):
CTAAACCACAATTTAATTAATTTATTTAAAAGCT
Found at i:41708807 original size:34 final size:34
Alignment explanation
Indices: 41708725--41708808 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
41708715 TTTAAAAACT
* * *
41708725 AAACCATAATTTAATTAATTTTCTTAAAAGCTCTA
1 AAACC-TAATTTAATTAATTTTCTTAAAACCCCAA
* *
41708760 AACCCCAATTTAATTAATTTAT-TTAAAACCCCAA
1 AAACCTAATTTAATTAATTT-TCTTAAAACCCCAA
*
41708794 AAACCTAAGTTAATT
1 AAACCTAATTTAATT
41708809 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
34 35 0.88
35 5 0.12
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (34 bp):
AAACCTAATTTAATTAATTTTCTTAAAACCCCAA
Found at i:41708902 original size:33 final size:33
Alignment explanation
Indices: 41708860--41708922 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
41708850 CCTTAAAACC
* *
41708860 TAACTCTAAATTATTTTAAGAAAACCCTAACTT
1 TAACCCTAAATTATTTTAACAAAACCCTAACTT
*
41708893 TAACCCTAAATTATTTTAACAAAACTCTAA
1 TAACCCTAAATTATTTTAACAAAACCCTAA
41708923 AATCATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (33 bp):
TAACCCTAAATTATTTTAACAAAACCCTAACTT
Found at i:41716273 original size:12 final size:12
Alignment explanation
Indices: 41716256--41716280 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41716246 TTGGGAATTT
41716256 TTCCAAAAGAAA
1 TTCCAAAAGAAA
41716268 TTCCAAAAGAAA
1 TTCCAAAAGAAA
41716280 T
1 T
41716281 ATGTTGGCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TTCCAAAAGAAA
Found at i:41725723 original size:37 final size:37
Alignment explanation
Indices: 41725680--41725785 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 37
41725670 CATTATTTTA
*
41725680 GCGTGTTATCGGGTGGATTAGCTCTAATGAGCATTTG
1 GCGTGTTATCGGGTGGATTAGCTCTAATGAGCAATTG
* * * *
41725717 GTGTGTT-TACGGTTGGACTAGCTCTTCA-GAGCAATTG
1 GCGTGTTAT-CGGGTGGATTAGCTC-TAATGAGCAATTG
* *
41725754 GCGTGTTATCGTGTGGATTAGCTCTTATGAGC
1 GCGTGTTATCGGGTGGATTAGCTCTAATGAGC
41725786 TTCTAGCATG
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
36 3 0.05
37 49 0.89
38 3 0.05
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (37 bp):
GCGTGTTATCGGGTGGATTAGCTCTAATGAGCAATTG
Found at i:41729275 original size:46 final size:47
Alignment explanation
Indices: 41729207--41729305 Score: 121
Period size: 46 Copynumber: 2.1 Consensus size: 47
41729197 AACCCTGTTT
* * *
41729207 TGGACAGCAATTATTCAACAAATTTGACAGCA-ATAATATGCTCAAAA
1 TGGACAGCAATTATACAACAAATTAGACAGCATA-AATATACTCAAAA
* *
41729254 TGGACAGC-ATTATACATCAAATTAGACAGCTTAAATATACTCAAAA
1 TGGACAGCAATTATACAACAAATTAGACAGCATAAATATACTCAAAA
*
41729300 TTGACA
1 TGGACA
41729306 TCAAATTTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
46 36 0.80
47 9 0.20
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (47 bp):
TGGACAGCAATTATACAACAAATTAGACAGCATAAATATACTCAAAA
Found at i:41730324 original size:28 final size:26
Alignment explanation
Indices: 41730292--41730389 Score: 115
Period size: 28 Copynumber: 3.6 Consensus size: 26
41730282 TTAATAAGTA
* *
41730292 CGCACACTTAGAGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT--TAATTAAACT
* *
41730320 CGCACACTTAGTGCTTTACCTTATACT
1 CGCACACTTAGTGCTTTA-ATTAAACT
41730347 CGCACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGC-TTT-AATTAAACT
41730375 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41730390 AATCTCATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
26 2 0.03
27 20 0.33
28 38 0.62
29 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.31
Consensus pattern (26 bp):
CGCACACTTAGTGCTTTAATTAAACT
Found at i:41732703 original size:10 final size:10
Alignment explanation
Indices: 41732690--41732798 Score: 63
Period size: 11 Copynumber: 11.1 Consensus size: 10
41732680 TTATTTTTTA
41732690 ATTTTAAAAT
1 ATTTTAAAAT
*
41732700 ATTTT-TAAT
1 ATTTTAAAAT
* **
41732709 TTTTTTTAAT
1 ATTTTAAAAT
41732719 --TTTAAAAT
1 ATTTTAAAAT
41732727 ATTTTTAAAA-
1 A-TTTTAAAAT
41732737 ATTTTTAAAAT
1 A-TTTTAAAAT
*
41732748 ACTTTT--TA-
1 A-TTTTAAAAT
41732756 ATTTTAAAAT
1 ATTTTAAAAT
41732766 ATTTTTAAAAT
1 A-TTTTAAAAT
41732777 ACTTTTTAAAAT
1 A--TTTTAAAAT
41732789 -TTTTAAAAT
1 ATTTTAAAAT
41732798 A
1 A
41732799 AATTTTTGGT
Statistics
Matches: 81, Mismatches: 7, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
7 4 0.05
8 7 0.09
9 18 0.22
10 20 0.25
11 22 0.27
12 10 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:41732713 original size:27 final size:28
Alignment explanation
Indices: 41732658--41732734 Score: 120
Period size: 27 Copynumber: 2.7 Consensus size: 28
41732648 AATTTTAAAA
*
41732658 TAATTTTAAAATACTTTTTTTATTATTTTT
1 TAATTTTAAAATA--TTTTTAATTATTTTT
41732688 TAATTTTAAAATATTTTTAATT-TTTTT
1 TAATTTTAAAATATTTTTAATTATTTTT
41732715 TAATTTTAAAATATTTTTAA
1 TAATTTTAAAATATTTTTAA
41732735 AAATTTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 25 0.54
28 8 0.17
30 13 0.28
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (28 bp):
TAATTTTAAAATATTTTTAATTATTTTT
Found at i:41732741 original size:27 final size:27
Alignment explanation
Indices: 41732684--41732744 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
41732674 TTTTTATTAT
***
41732684 TTTTTAATTTTAAAATATTTTTAATTT
1 TTTTTAATTTTAAAATATTTTTAAAAA
41732711 TTTTTAATTTTAAAATATTTTTAAAAA
1 TTTTTAATTTTAAAATATTTTTAAAAA
41732738 TTTTTAA
1 TTTTTAA
41732745 AATACTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTTTAATTTTAAAATATTTTTAAAAA
Found at i:41732759 original size:29 final size:31
Alignment explanation
Indices: 41732727--41732798 Score: 114
Period size: 29 Copynumber: 2.4 Consensus size: 31
41732717 ATTTTAAAAT
41732727 ATTTTTAAAA-ATTTTTAAAATACTTTTT-A
1 ATTTTTAAAATATTTTTAAAATACTTTTTAA
41732756 A-TTTTAAAATATTTTTAAAATACTTTTTAAA
1 ATTTTTAAAATATTTTTAAAATACTTTTT-AA
41732787 ATTTTTAAAATA
1 ATTTTTAAAATA
41732799 AATTTTTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
28 8 0.21
29 19 0.49
31 2 0.05
32 10 0.26
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTTTAAAATATTTTTAAAATACTTTTTAA
Found at i:41732804 original size:21 final size:23
Alignment explanation
Indices: 41732716--41732804 Score: 79
Period size: 21 Copynumber: 4.3 Consensus size: 23
41732706 AATTTTTTTT
41732716 AATTTTAAAATATTTTT-AAA-A
1 AATTTTAAAATATTTTTAAAATA
* *
41732737 ATTTTTAAAATACTTTT----T-
1 AATTTTAAAATATTTTTAAAATA
41732755 AATTTTAAAATATTTTTAAAAT-
1 AATTTTAAAATATTTTTAAAATA
* *
41732777 ACTTTTTAAA-ATTTTTAAAATA
1 AATTTTAAAATATTTTTAAAATA
41732799 AATTTT
1 AATTTT
41732805 TGGTATTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
18 15 0.27
21 26 0.47
22 14 0.25
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTTTAAAATATTTTTAAAATA
Found at i:41732812 original size:22 final size:21
Alignment explanation
Indices: 41732754--41732819 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
41732744 AAATACTTTT
*
41732754 TAATTTTAAAATATTTTTAAAA
1 TAATTTT-TAATATTTTTAAAA
* *
41732776 TACTTTTTAAAATTTTTAAAA
1 TAATTTTTAATATTTTTAAAA
**
41732797 TAAATTTTTGGTATTTATTAAAA
1 T-AATTTTTAATATTT-TTAAAA
41732820 AACTGGGCCG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 13 0.37
22 16 0.46
23 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (21 bp):
TAATTTTTAATATTTTTAAAA
Found at i:41733929 original size:29 final size:29
Alignment explanation
Indices: 41733888--41733945 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
41733878 CTGTCTTCTC
41733888 CCCCAAACGTTCTTTCCCCTCTGCCGGTT
1 CCCCAAACGTTCTTTCCCCTCTGCCGGTT
*
41733917 CCCCAAACGTTCTTTCCCCTCTGCTGGTT
1 CCCCAAACGTTCTTTCCCCTCTGCCGGTT
41733946 TTTTGGAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.10, C:0.43, G:0.14, T:0.33
Consensus pattern (29 bp):
CCCCAAACGTTCTTTCCCCTCTGCCGGTT
Found at i:41738252 original size:13 final size:13
Alignment explanation
Indices: 41738200--41738254 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
41738190 CAAAATTTTC
*
41738200 AAAAGCACTTCTC
1 AAAAGCACTTCTT
*
41738213 AAAATCAC-TCTT
1 AAAAGCACTTCTT
*
41738225 AAAAGCACTCCTT
1 AAAAGCACTTCTT
*
41738238 AAAAGCACTTTTT
1 AAAAGCACTTCTT
41738251 AAAA
1 AAAA
41738255 ACAATGAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 10 0.29
13 25 0.71
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.27
Consensus pattern (13 bp):
AAAAGCACTTCTT
Found at i:41740210 original size:9 final size:9
Alignment explanation
Indices: 41740178--41740214 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
41740168 TGAATTTTCG
41740178 AATTCGAAT
1 AATTCGAAT
*
41740187 AACTCGAAT
1 AATTCGAAT
41740196 AATTCGAAT
1 AATTCGAAT
*
41740205 AGTTCGAAT
1 AATTCGAAT
41740214 A
1 A
41740215 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:41740588 original size:17 final size:16
Alignment explanation
Indices: 41740554--41740584 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41740544 CCTATTTACT
*
41740554 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
41740570 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
41740585 TATTTTCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:41750182 original size:15 final size:17
Alignment explanation
Indices: 41750146--41750179 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
41750136 TTTTCAAGAG
41750146 CTTTCATCTCAAATTCT
1 CTTTCATCTCAAATTCT
41750163 CTTTCATCTCAAATTCT
1 CTTTCATCTCAAATTCT
41750180 TTCTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (17 bp):
CTTTCATCTCAAATTCT
Found at i:41765033 original size:3 final size:3
Alignment explanation
Indices: 41765025--41765050 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
41765015 ATAAAAGGAA
41765025 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
41765051 AGTTAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:41766621 original size:44 final size:43
Alignment explanation
Indices: 41766558--41767201 Score: 219
Period size: 44 Copynumber: 14.6 Consensus size: 43
41766548 GATTTACTCT
*
41766558 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * * *
41766602 ACTGTAATCTCAGAGAGATAGGAT--TACTAGCTTCAATCTGCTCC
1 ACTGTAA-CTCAGGGAGATAAGATCCT-TTA-TTTTAATCCGCTCC
* ** ** **
41766646 GCTGTAACTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTCC
1 ACTGTAACTCAGGGAGATAAGATCCT-TTATT-TT-AATCCGCTCC
* *** * *
41766691 ACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCGATCCACTCT
1 ACTGTAA-CTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * *
41766732 GCTGTAACTTCAGAGAGTTAAGATCCTTTATTTTAATCCACTTC
1 ACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * *
41766776 ACTGTAATCTTAGGGAGATAGGAT--TACTATCTTTAATCTGCTCC
1 ACTGTAA-CTCAGGGAGATAAGATCCT-TTAT-TTTAATCCGCTCC
* * * * *
41766820 GCTGTAACCTCAGGGAGATAAGAT-C-TGA--TGAGATCCACTCT
1 ACTGTAA-CTCAGGGAGATAAGATCCTTTATTTTA-ATCCGCTCC
* * *
41766861 GCTGTAACTTCAGAGAGATAAGATCCTTTATTTTATTCCGCTCC
1 ACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * *
41766905 ACTGTAATCTCAGGGAGATAGGAT--TACTATCTTCAATCTGCTCC
1 ACTGTAA-CTCAGGGAGATAAGATCCT-TTAT-TTTAATCCGCTCC
* * * **** ** *
41766949 ACTGTAACCTCAGAGAGATAAGAT--ATGA-CGCGATCTACTCT
1 ACTGTAA-CTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * *
41766990 GCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCC
1 ACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * **
41767034 ACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAACTC
1 ACTGTAA-CTCAGGGAGATAAGA-T-C---CTTTATTTTAATCCGC--T--C-C
*
41767088 TACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * *
41767133 ACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGCTCC
1 ACTGTAA-CTCAGGGAGATAAGATCCT-TTA-TTTTAATCCGCTCC
*
41767177 GCTGTAATCTCAGGGAGATAAGATC
1 ACTGTAA-CTCAGGGAGATAAGATC
41767202 TGAAATTCTT
Statistics
Matches: 445, Mismatches: 109, Indels: 91
0.69 0.17 0.14
Matches are distributed among these distances:
40 5 0.01
41 81 0.18
42 7 0.02
43 34 0.08
44 231 0.52
45 22 0.05
46 18 0.04
48 1 0.00
49 10 0.02
50 11 0.02
51 1 0.00
53 2 0.00
54 3 0.01
55 19 0.04
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
ACTGTAACTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
Found at i:41766840 original size:129 final size:129
Alignment explanation
Indices: 41766687--41767379 Score: 701
Period size: 129 Copynumber: 5.2 Consensus size: 129
41766677 CTTCGGTCTA
* *
41766687 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGTTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATA
* * *
41766752 AGATCCTTTATTTTAATCCACTTCACTGTAATCTTAGGGAGATAGGATTACTATCTTTAATCTG
66 AGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
* *
41766816 CTCCGCTGTAACCTCAGGGAGATAAGATCTGATGAGATCCACTCTGCTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATA
* *
41766881 AGATCCTTTATTTTATTCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
66 AGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
* * * *
41766945 CTCCACTGTAACCTCAGAGAGATAAGATATGACGCGATCTACTCTGCTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATA
*
41767010 AGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGC
66 AGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAA--T-C
41767075 TCCG
128 T--G
* * * *** * **
41767079 CTGTAACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-TCT
1 C--T--C-C-ACTGTAACCTCAGGGAGATAAGAT-C-TGA-TGCGATCCACTCTGCTGTAACT-T
* * * * * ** * *
41767143 CAGGGAGATAGGAT--TACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-
56 CAGAGAGATAAGATCCT-TTA-TTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGAT-T-AC
* **
41767205 AATTCTTCGGTCTG
117 TA-TCTTCAATCTG
* * * * * * *
41767219 TTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTTAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATA
* ** ** * * * *
41767284 AGATCATTGGTTTTAATCTGCTCCACTGTAAACTCAGGGAGATAGGATTACCAGCTTCAATCTA
66 AGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
* *
41767348 CTCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGA
41767380 AAATCTTCAG
Statistics
Matches: 463, Mismatches: 77, Indels: 48
0.79 0.13 0.08
Matches are distributed among these distances:
129 272 0.59
130 2 0.00
131 58 0.13
132 5 0.01
133 2 0.00
134 21 0.05
135 1 0.00
136 2 0.00
138 2 0.00
139 1 0.00
140 24 0.05
141 1 0.00
142 7 0.02
143 58 0.13
144 2 0.00
145 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (129 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
Found at i:41767156 original size:99 final size:99
Alignment explanation
Indices: 41766985--41767183 Score: 371
Period size: 99 Copynumber: 2.0 Consensus size: 99
41766975 GACGCGATCT
*
41766985 ACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGA
1 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGA
41767050 GATAGGATTACTAACTTCAATCTGCTCCGCTGTA
66 GATAGGATTACTAACTTCAATCTGCTCCGCTGTA
*
41767084 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGA
1 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGA
*
41767149 GATAGGATTACTAGCTTCAATCTGCTCCGCTGTA
66 GATAGGATTACTAACTTCAATCTGCTCCGCTGTA
41767183 A
1 A
41767184 TCTCAGGGAG
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (99 bp):
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGA
GATAGGATTACTAACTTCAATCTGCTCCGCTGTA
Found at i:41767326 original size:44 final size:43
Alignment explanation
Indices: 41767084--41767804 Score: 265
Period size: 44 Copynumber: 16.7 Consensus size: 43
41767074 CTCCGCTGTA
* * * * * *
41767084 ACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCC
1 ACTCCACTGTAATC-TCAGGGAGATAAGAT-CATTGTTTCAATCT
* * * * *
41767128 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCA-TTGTTTCAATCT
* * * **
41767172 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT-CTTCGGTCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATC----ATTGTTTCAATCT
** * * *** *
41767218 GTTCCACTGTAATCTCAGGGAAATAAGA-C-CTGACGCGATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCATTGTTTCAATCT
** * * *
41767259 ACTCTGCTGTAA-CTTTAGAGAGATAAGATCATTGGTTTTAATCT
1 ACTCCACTGTAATC-TCAGGGAGATAAGATCATT-GTTTCAATCT
* * * * ** *
41767303 GCTCCACTGTAAACTCAGGGAGATAGGATTACCAGCTTCAATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCA-TTGTTTCAATCT
* *** *
41767347 ACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAATCTTCAGTCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATC--ATTGT-TTCAATCT
** * * * * *** *
41767393 GTTCCACTGTAATCTCAGGTAAATAATA-C-CTGGCGCGATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCATTGTTTCAATCT
** * * * * *
41767434 ACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTCATTTTAATCC
1 ACTCCACTGTAATC-TCAGGGAGATAAGATCATT-GTTTCAATCT
* * * *
41767478 ACTCCATTGTAATCTCAGGGAGATAGGAT-AGTGCTTCAATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCATTGTTTCAATCT
* * *** *
41767520 GCTCCGCTGTAATCTCAGGGAGATAAGATC--TGACACGATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCATTGTTTCAATCT
* * * * * * *
41767561 ACTCTAC-GT-AGCTTCAGAGAGATAAGATCCTTCATTTTAATCC
1 ACTCCACTGTAATC-TCAGGGAGATAAGATCATT-GTTTCAATCT
* * *
41767604 ACTCCACTGTAATCTCAGGGAGATAGGAT-AGTGCTTCAATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCATTGTTTCAATCT
* ** *
41767646 GCTCCGTTGTAATCTCAGGGAGATAAGATC--TG--ACATGATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCATTGTTTCA--ATCT
* * * * * *
41767687 ACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCC
1 ACTCCACTGTAATC-TCAGGGAGATAAGAT-CATTGTTTCAATCT
* * * * *
41767731 GCTCCACTGTAATCTTAGGGAGATAAGATTACTAGCTTCAATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCA-TTGTTTCAATCT
*
41767775 ACTCCGCTGTAATCTCAGGGAGATAAGATC
1 ACTCCACTGTAATCTCAGGGAGATAAGATC
41767805 TGAAATTCTT
Statistics
Matches: 480, Mismatches: 158, Indels: 78
0.67 0.22 0.11
Matches are distributed among these distances:
39 4 0.01
40 21 0.04
41 85 0.18
42 66 0.14
43 13 0.03
44 217 0.45
45 9 0.02
46 63 0.13
47 1 0.00
48 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
ACTCCACTGTAATCTCAGGGAGATAAGATCATTGTTTCAATCT
Found at i:41767381 original size:175 final size:175
Alignment explanation
Indices: 41766552--41767552 Score: 910
Period size: 175 Copynumber: 5.7 Consensus size: 175
41766542 TGATGTGATT
* * *
41766552 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGAG
1 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGG
* *
41766617 AGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-CTCAGGGAGATAAGATCTGAAATTCTTC
66 AGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAATCTTC
* ** * * *
41766681 GGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
131 AGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATC
* * * * * *
41766726 CACTCTGCTGTAACTTCAGAGAGTTAAGATCCTTTATTTTAATCCACTTCACTGTAATCTTAGGG
1 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGG
* * * * *
41766791 AGATAGGATTACTATCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGATGAGATC-
66 AGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA--AAATCT
* * * * ****
41766855 -CACTCTG-----CTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTATTC
129 TCAGTCTGTTCCACTGTAATC-TCAGGGAAATAAGA-CC-TGACGCGA-TC
** ** * * * * * *
41766899 CGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTCAATCTGCTCCACTGTAACCTCA
1 TACTCTGCTGTAACT-TCAGAGAGATAAGATCCTTC-AT-TTTAATCCGCTCCACTGTAATCTCA
* * ** * * * * * **
41766961 GAGAGATAAGA-TATGA-C-GCGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCT--TTA
63 GGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATC-TCAGGGAGATAAGAT-CTGAAAA
* * *** * * * * *
41767020 T-TTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTG
126 TCTTCAGTCTGTTCCACTGTAATCTCAGGGAAATA--A-GAC---C-T-GA-C-G---CGATC
* *
41767082 TAACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGG
1 T-ACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGG
* *
41767147 GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTT
65 GAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAATCTT
*
41767212 CGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATC
130 CAGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATC
* * ** * *
41767258 TACTCTGCTGTAACTTTAGAGAGATAAGATCATTGGTTTTAATCTGCTCCACTGTAAACTCAGGG
1 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGG
*
41767323 AGATAGGATTACCAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAATCTTC
66 AGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAATCTTC
* * *
41767388 AGTCTGTTCCACTGTAATCTCAGGTAAATAATACCTGGCGCGATC
131 AGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATC
* *
41767433 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCATTGTAATCTCAGGG
1 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGG
**
41767498 AGATAGGA-TA-GTGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
66 AGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
41767553 CACGATCTAC
Statistics
Matches: 668, Mismatches: 116, Indels: 87
0.77 0.13 0.10
Matches are distributed among these distances:
167 2 0.00
168 3 0.00
169 2 0.00
170 47 0.07
171 6 0.01
172 10 0.01
173 110 0.16
174 95 0.14
175 251 0.38
176 5 0.01
177 3 0.00
178 3 0.00
179 2 0.00
180 1 0.00
181 1 0.00
182 1 0.00
183 2 0.00
184 54 0.08
185 6 0.01
186 6 0.01
187 30 0.04
188 2 0.00
189 26 0.04
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (175 bp):
TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAGGG
AGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAATCTTC
AGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATC
Found at i:41767457 original size:87 final size:87
Alignment explanation
Indices: 41767168--41767463 Score: 291
Period size: 87 Copynumber: 3.4 Consensus size: 87
41767158 ACTAGCTTCA
* * * *
41767168 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
1 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTGAAAATCTTCAGTCTGTTCCACTGTAATCT
* *
41767233 CAGGGAAATAAGACCTGACGCG
66 CAGGGAAATAATACCTGGCGCG
* * * * * *
41767255 ATCTACTCTGCTGTAA-CTTTAGAGAGATAAGATCATTG---GT-TTTAATCTGCTCCACTGTAA
1 ATCTACTCCGCTGTAATC-TCAGAGAGATAAGATC--TGAAAATCTTCAGTCTGTTCCACTGTAA
* * * * *
41767315 ACTCAGGGAGATAGGATTACC-AGCTTCA
63 TCTCAGGGAAATA--A-TACCTGGC-GCG
*
41767343 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAATCTTCAGTCTGTTCCACTGTAATCT
1 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTGAAAATCTTCAGTCTGTTCCACTGTAATCT
*
41767408 CAGGTAAATAATACCTGGCGCG
66 CAGGGAAATAATACCTGGCGCG
*
41767430 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATC
1 ATCTACTCCGCTGTAATC-TCAGAGAGATAAGATC
41767464 CTTCATTTTA
Statistics
Matches: 164, Mismatches: 31, Indels: 28
0.74 0.14 0.13
Matches are distributed among these distances:
85 27 0.16
86 5 0.03
87 65 0.40
88 36 0.22
89 4 0.02
90 27 0.16
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (87 bp):
ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTGAAAATCTTCAGTCTGTTCCACTGTAATCT
CAGGGAAATAATACCTGGCGCG
Found at i:41767600 original size:126 final size:127
Alignment explanation
Indices: 41767384--41767807 Score: 643
Period size: 126 Copynumber: 3.3 Consensus size: 127
41767374 ATCTGAAAAT
* * * * * * * * * *
41767384 CTTCAGTCTGTTCCACTGTAATCTCAGGTAAATAATACCTGGCGCGATCTACTCTGCTGTAACTT
1 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTT
*
41767449 CAGAGAGATAAGATCCTTCATTTTAATCCACTCCATTGTAATCTCAGGGAGATAGGATAGTG
66 CAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATAGTG
*
41767511 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTAC-GTAGCTT
1 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTT
41767575 CAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATAGTG
66 CAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATAGTG
* *
41767637 CTTCAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATCTGACATGATCTACTCTACTGTAACTT
1 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTT
* * * * *
41767702 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAGATAAGATTACTAG
66 CAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGA-TAGT-G
*
41767766 CTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
41767808 AATTCTTCAG
Statistics
Matches: 272, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
126 122 0.45
127 106 0.39
128 3 0.01
129 41 0.15
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (127 bp):
CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTT
CAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATAGTG
Found at i:41770216 original size:9 final size:9
Alignment explanation
Indices: 41770196--41770284 Score: 82
Period size: 8 Copynumber: 10.3 Consensus size: 9
41770186 TATTTTTGAC
41770196 TTTGATTTTT
1 TTTGA-TTTT
41770206 TTTGATTTT
1 TTTGATTTT
*
41770215 TTTTATTTT
1 TTTGATTTT
*
41770224 TTT-AATTT
1 TTTGATTTT
41770232 TTTGA-TTT
1 TTTGATTTT
41770240 TTTGA-TTT
1 TTTGATTTT
41770248 TTTGATTTT
1 TTTGATTTT
*
41770257 GTTT--TTGT
1 -TTTGATTTT
*
41770265 TTTGTTTTT
1 TTTGATTTT
41770274 TTTG-TTTT
1 TTTGATTTT
41770282 TTT
1 TTT
41770285 TAGTCTAAAC
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
7 3 0.04
8 33 0.47
9 26 0.37
10 8 0.11
ACGTcount: A:0.09, C:0.00, G:0.10, T:0.81
Consensus pattern (9 bp):
TTTGATTTT
Found at i:41774302 original size:21 final size:22
Alignment explanation
Indices: 41774258--41774303 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
41774248 CAAAAAAAAA
* *
41774258 TTGTTACTACTTTTTTACTGTT
1 TTGTCACTACTTTTTTACTATT
*
41774280 TTGTCACTA-TTTTTTATTATT
1 TTGTCACTACTTTTTTACTATT
41774301 TTG
1 TTG
41774304 CTATCATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.65
Consensus pattern (22 bp):
TTGTCACTACTTTTTTACTATT
Found at i:41780297 original size:22 final size:22
Alignment explanation
Indices: 41780262--41780336 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 22
41780252 ACAAAAAGAA
* *
41780262 TTTTTTTCATAATTTTTGAATT
1 TTTTTTTAAAAATTTTTGAATT
* **
41780284 TTTTTTTAAAAATTTGT-AAAC
1 TTTTTTTAAAAATTTTTGAATT
** *
41780305 TTTTTTTAAAAAAATTTGTATT
1 TTTTTTTAAAAATTTTTGAATT
41780327 TATTTTTTAA
1 T-TTTTTTAA
41780337 CTTTTATAGA
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
21 16 0.40
22 16 0.40
23 8 0.20
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTTTTTAAAAATTTTTGAATT
Found at i:41784172 original size:50 final size:50
Alignment explanation
Indices: 41784106--41784225 Score: 195
Period size: 50 Copynumber: 2.4 Consensus size: 50
41784096 AATGAAAAAG
* * *
41784106 ATATGATGGTAGCTGTGCATTTCAACTTCTCTGATTTAGTTAGTATACAT
1 ATATGATAGTACCTGTGCATTTCAACTTCTCTGATTTAGTTAGTATAAAT
*
41784156 ATATGATAGTACCTGTGCATTTCGACTTCTCTGATTTAGTTAGTATAAAT
1 ATATGATAGTACCTGTGCATTTCAACTTCTCTGATTTAGTTAGTATAAAT
*
41784206 ATATGATAGTACCCGTGCAT
1 ATATGATAGTACCTGTGCAT
41784226 CATGTGGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (50 bp):
ATATGATAGTACCTGTGCATTTCAACTTCTCTGATTTAGTTAGTATAAAT
Found at i:41787091 original size:5 final size:5
Alignment explanation
Indices: 41787081--41787142 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
41787071 AAATATGTTT
41787081 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTAT- TATATTA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA T-TA-TA
41787131 TTATA TATATA T
1 TTATA T-TATA T
41787143 GACAAAGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
3 2 0.04
4 3 0.06
5 31 0.62
6 13 0.26
7 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:41787097 original size:3 final size:3
Alignment explanation
Indices: 41787084--41787134 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
41787074 TATGTTTTTA
*
41787084 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
41787126 TAT TAT TAT
1 TAT TAT TAT
41787135 ATATATATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
2 12 0.29
3 29 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:41787097 original size:8 final size:8
Alignment explanation
Indices: 41787081--41787136 Score: 62
Period size: 8 Copynumber: 6.8 Consensus size: 8
41787071 AAATATGTTT
41787081 TTATATTA
1 TTATATTA
41787089 -TATTATTA
1 TTA-TATTA
41787097 TTA-ATATA
1 TTATAT-TA
41787105 TTATATTATA
1 TTATA-T-TA
41787115 TTATATTA
1 TTATATTA
41787123 TTATATTA
1 TTATATTA
41787131 TTATAT
1 TTATAT
41787137 ATATATGACA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
7 4 0.09
8 26 0.60
9 4 0.09
10 9 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:41787208 original size:40 final size:40
Alignment explanation
Indices: 41787151--41787246 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
41787141 ATGACAAAGA
41787151 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
41787192 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
41787232 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
41787247 AAAGAAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:41788657 original size:41 final size:39
Alignment explanation
Indices: 41788609--41788720 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
41788599 TCGACCTTGA
41788609 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
41788649 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
41788687 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
41788721 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:41792226 original size:22 final size:21
Alignment explanation
Indices: 41792201--41792241 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
41792191 TTCTTTTTTT
*
41792201 TCTATTCTCTTCTGCTTCTCCC
1 TCTATTCTCCTCT-CTTCTCCC
*
41792223 TCTATTTTCCTCTCTTCTC
1 TCTATTCTCCTCTCTTCTC
41792242 AATCTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.05, C:0.39, G:0.02, T:0.54
Consensus pattern (21 bp):
TCTATTCTCCTCTCTTCTCCC
Found at i:41792463 original size:31 final size:29
Alignment explanation
Indices: 41792398--41792464 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
41792388 TTAACACTCG
*** *
41792398 GTGACTAAAATGTAACATTTCAAACATAA
1 GTGACTAAAATGTAACATGAAAAACAGAA
*
41792427 ATGACTAAAATGTAACATGAGAAAAACAGAA
1 GTGACTAAAATGTAACAT--GAAAAACAGAA
41792458 GTGACTA
1 GTGACTA
41792465 TTTTGAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 17 0.57
31 13 0.43
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (29 bp):
GTGACTAAAATGTAACATGAAAAACAGAA
Found at i:41793878 original size:34 final size:34
Alignment explanation
Indices: 41793836--41793900 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
41793826 TTTTTAATTT
41793836 TAAAATTAAATT-AATTAATTATTTTAAGGAAGAA
1 TAAAATT-AATTAAATTAATTATTTTAAGGAAGAA
41793870 TAAAATTAATTAAATTAATTATTTTAAGGAA
1 TAAAATTAATTAAATTAATTATTTTAAGGAA
41793901 TAATTTCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (34 bp):
TAAAATTAATTAAATTAATTATTTTAAGGAAGAA
Found at i:41811220 original size:110 final size:110
Alignment explanation
Indices: 41811027--41811245 Score: 384
Period size: 110 Copynumber: 2.0 Consensus size: 110
41811017 TTAGCACATT
* *
41811027 TTATGTGAGCTTTCCCGCGTATCCGATATTATTCTAAGTGATTCAACGGGCATGCAAAGGGAATG
1 TTATGTAAGCTTTCCCGCGTATCCGATATTATTCTAAGTGATTCAACGGGCATGCAAAGGGAAGG
* *
41811092 AACGGTAAGTGTTCTAATGGTTATGTTATAAACATATGGAAAGGA
66 AACAGTAAGTGTTCTAATGGTTATCTTATAAACATATGGAAAGGA
*
41811137 TTATGTAAGCTTTCCCGCGTATCCGATATTATTCTAAGTGATTCAACGGGCATGCATAGGGAAGG
1 TTATGTAAGCTTTCCCGCGTATCCGATATTATTCTAAGTGATTCAACGGGCATGCAAAGGGAAGG
*
41811202 AACAGTAAGTGTTCTAATGGTTATCTTATAAACCTATGGAAAGG
66 AACAGTAAGTGTTCTAATGGTTATCTTATAAACATATGGAAAGG
41811246 TATGAAATGA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 103 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (110 bp):
TTATGTAAGCTTTCCCGCGTATCCGATATTATTCTAAGTGATTCAACGGGCATGCAAAGGGAAGG
AACAGTAAGTGTTCTAATGGTTATCTTATAAACATATGGAAAGGA
Found at i:41822203 original size:25 final size:25
Alignment explanation
Indices: 41822172--41822241 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
41822162 GATGAAATAA
*
41822172 CGGTAAGCTCATACGAGCTG-AGAAT
1 CGGTAAGCTCATATGAGCTGCA-AAT
41822197 CGGTAAGCTC-TCATGAGCTGCAAAT
1 CGGTAAGCTCAT-ATGAGCTGCAAAT
* *
41822222 CAGTAAGCTTATATGAGCTG
1 CGGTAAGCTCATATGAGCTG
41822242 TGGTGTATCC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
24 1 0.03
25 36 0.92
26 2 0.05
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (25 bp):
CGGTAAGCTCATATGAGCTGCAAAT
Found at i:41825731 original size:57 final size:57
Alignment explanation
Indices: 41825643--41825759 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
41825633 CAGGTTCCAA
*
41825643 ATTATGATTTTACTTCTTTTTTTTCAAGTAATATATGATTCAACTGACACCTGTTTT
1 ATTATGATTTTACTTCTTTTTTTTCAAGTAATATATGATTCAACTGACACCTATTTT
41825700 ATTATGATTTTACTTCTTTTTTTTCAAGTAATATATGATTCAACTGACACCTATTTT
1 ATTATGATTTTACTTCTTTTTTTTCAAGTAATATATGATTCAACTGACACCTATTTT
41825757 ATT
1 ATT
41825760 CTAAACATGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (57 bp):
ATTATGATTTTACTTCTTTTTTTTCAAGTAATATATGATTCAACTGACACCTATTTT
Found at i:41828061 original size:17 final size:17
Alignment explanation
Indices: 41828034--41828075 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
41828024 TTTTAAAGTA
*
41828034 AAAATAATAAAAATTATT
1 AAAA-AATAAAAATCATT
*
41828052 TAAAAATAAAAATCATT
1 AAAAAATAAAAATCATT
41828069 AAAAAAT
1 AAAAAAT
41828076 GTAAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAATAAAAATCATT
Found at i:41831921 original size:5 final size:5
Alignment explanation
Indices: 41831911--41831936 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
41831901 TTCCTTTTTT
41831911 GGGTG GGGTG GGGTG GGGTG GGGTG G
1 GGGTG GGGTG GGGTG GGGTG GGGTG G
41831937 TGGTTTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (5 bp):
GGGTG
Found at i:41832603 original size:21 final size:21
Alignment explanation
Indices: 41832578--41832624 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
41832568 AATAACTCTT
*
41832578 TTATTTTATATAA-ATAAATA
1 TTATTTTATATAATAAAAATA
41832598 TGTA--TTATATAATAAAAATA
1 T-TATTTTATATAATAAAAATA
41832618 TTATTTT
1 TTATTTT
41832625 TTTATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
19 10 0.45
20 8 0.36
21 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTATTTTATATAATAAAAATA
Found at i:41833004 original size:13 final size:13
Alignment explanation
Indices: 41832974--41832998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41832964 CAATATATTT
41832974 ATTAATTAAAAAC
1 ATTAATTAAAAAC
41832987 ATTAATTAAAAA
1 ATTAATTAAAAA
41832999 ATTTAAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:41833020 original size:22 final size:21
Alignment explanation
Indices: 41832977--41833021 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
41832967 TATATTTATT
* *
41832977 AATTAAAAACATTAATTAAAA
1 AATTAAAAACATGAAATAAAA
*
41832998 AATTTAAAACATGAAATAGAAA
1 AATTAAAAACATGAAATA-AAA
41833020 AA
1 AA
41833022 GATTTGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (21 bp):
AATTAAAAACATGAAATAAAA
Found at i:41834809 original size:23 final size:23
Alignment explanation
Indices: 41834779--41834853 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
41834769 GTGTTATTGA
*
41834779 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
41834802 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
41834825 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
41834848 TCAGTG
1 TCAGTG
41834854 TTGCACTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:41839632 original size:33 final size:33
Alignment explanation
Indices: 41839590--41839655 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
41839580 AATCTAACAA
41839590 ATACCAACAATTAATTTTACGTCAATTATACAT
1 ATACCAACAATTAATTTTACGTCAATTATACAT
*
41839623 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTACGTCAATTATACAT
41839656 GCTTTATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (33 bp):
ATACCAACAATTAATTTTACGTCAATTATACAT
Found at i:41841343 original size:32 final size:29
Alignment explanation
Indices: 41841284--41841356 Score: 119
Period size: 32 Copynumber: 2.4 Consensus size: 29
41841274 ATTTCTTCTC
41841284 ATTTTAAATTTTAAATTTTTTGTGTTATA
1 ATTTTAAATTTTAAATTTTTTGTGTTATA
41841313 ATTTTAAATTTTAAATTATAGTTTGTGTTATA
1 ATTTTAAATTTTAAATT-T--TTTGTGTTATA
41841345 ATTTTAAATTTT
1 ATTTTAAATTTT
41841357 TTGTGGTATG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
29 17 0.41
30 1 0.02
32 23 0.56
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (29 bp):
ATTTTAAATTTTAAATTTTTTGTGTTATA
Found at i:41842828 original size:91 final size:91
Alignment explanation
Indices: 41842681--41842888 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
41842671 TTGATTTTAG
* * *
41842681 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAATTTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
41842746 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
41842773 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
41842838 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
41842864 AAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
41842889 GTTTTAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:41842857 original size:26 final size:28
Alignment explanation
Indices: 41842803--41842863 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
41842793 TATTATCAAG
* *
41842803 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
41842831 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
41842857 AATTATA
1 AATTATA
41842864 AAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:41842863 original size:44 final size:43
Alignment explanation
Indices: 41842721--41842863 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
41842711 GAATTTTATG
* * *
41842721 AAATTATATATCATTATTAATTTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
41842765 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
41842812 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
41842856 AAATTATA
1 AAATTATA
41842864 AAAATTCATA
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.15
47 13 0.17
48 3 0.04
49 5 0.07
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:41843032 original size:120 final size:120
Alignment explanation
Indices: 41842908--41843440 Score: 962
Period size: 120 Copynumber: 4.4 Consensus size: 120
41842898 ATTTTAAATG
* *
41842908 TTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTTTATA
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTTTATA
41842972 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
65 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
*
41843028 TTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAG
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAG
41843093 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
66 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
41843148 TTATTAAATTATATATTTTAATT-AAATATATTTAATAATAATTATGTTAAATTATCTTTTATAG
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAG
41843212 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
66 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
* *
41843267 TTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAG
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAG
*
41843332 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT
66 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
* *
41843387 TTATTAAATTATATATTTTAATTATAATACATTTAATAATAATTATGTTTAAAT
1 TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
41843441 ATGATTAAAT
Statistics
Matches: 404, Mismatches: 6, Indels: 5
0.97 0.01 0.01
Matches are distributed among these distances:
119 119 0.29
120 277 0.69
121 8 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAG
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
Found at i:41843165 original size:17 final size:17
Alignment explanation
Indices: 41843145--41843178 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
41843135 ATTATTAAGA
41843145 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
41843162 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
41843179 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:41843298 original size:16 final size:16
Alignment explanation
Indices: 41843277--41843323 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
41843267 TTATTAAATT
41843277 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
41843293 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
41843308 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
41843324 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:41843312 original size:239 final size:239
Alignment explanation
Indices: 41842908--41843440 Score: 960
Period size: 239 Copynumber: 2.2 Consensus size: 239
41842898 ATTTTAAATG
* *
41842908 TTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTTTATA
1 TTATTAAATTATATATTTTAATT-AAATATATTTAATAATAATTATGTT-AAATTATCTTTTATA
41842972 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
64 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
41843037 CATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATCATATA
129 CATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATA
41843102 TTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
194 TTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
41843148 TTATTAAATTATATATTTTAATTAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGT
1 TTATTAAATTATATATTTTAATTAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGT
*
41843213 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
66 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATCA
*
41843278 TATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATT
131 TATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATT
*
41843343 ATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT
196 ATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
*
41843387 TTATTAAATTATATATTTTAATTATAATACATTTAATAATAATTATGTTTAAAT
1 TTATTAAATTATATATTTTAATTA-AATATATTTAATAATAATTATG-TTAAAT
41843441 ATGATTAAAT
Statistics
Matches: 283, Mismatches: 7, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
239 232 0.82
240 45 0.16
241 6 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (239 bp):
TTATTAAATTATATATTTTAATTAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGT
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATCA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATT
ATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT
Found at i:41844257 original size:21 final size:20
Alignment explanation
Indices: 41844225--41844263 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
41844215 AGAAATGTAT
* *
41844225 AAAAATAGATAAATATTTTA
1 AAAAATAAATAAAAATTTTA
41844245 AAAAATAAAATAAAAATTT
1 AAAAAT-AAATAAAAATTT
41844264 AAATTTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAAATAAATAAAAATTTTA
Found at i:41844678 original size:14 final size:14
Alignment explanation
Indices: 41844659--41844698 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
41844649 TTGATTGCCA
41844659 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
41844673 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
41844687 GGAAAATGTTTT
1 GTAAAATGTTTT
41844699 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:41844705 original size:34 final size:35
Alignment explanation
Indices: 41844667--41844733 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
41844657 CAGTAAAATG
* *
41844667 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
41844701 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
41844734 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:41844707 original size:20 final size:20
Alignment explanation
Indices: 41844682--41844721 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41844672 CGTAAAATGA
*
41844682 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
41844702 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
41844722 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:41845154 original size:13 final size:13
Alignment explanation
Indices: 41845136--41845163 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
41845126 ATTCTTTCTC
41845136 TATTTATGAAGTT
1 TATTTATGAAGTT
41845149 TATTTATGAAGTT
1 TATTTATGAAGTT
41845162 TA
1 TA
41845164 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:41846587 original size:12 final size:12
Alignment explanation
Indices: 41846570--41846597 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
41846560 TTTTCCAGAA
41846570 AACATTATATCG
1 AACATTATATCG
41846582 AACATTATATCG
1 AACATTATATCG
41846594 AACA
1 AACA
41846598 CACAAACGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (12 bp):
AACATTATATCG
Found at i:41849021 original size:30 final size:30
Alignment explanation
Indices: 41848976--41849036 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
41848966 AAACTTCTTT
* *
41848976 ACTTTCTCCCAAAACTTTTACTTCT-TCCC
1 ACTTTCCCCCAAAACTTTTACTCCTCTCCC
41849005 ACTTTCCCCTCAAAACTTTTACTCCTCTCCC
1 ACTTTCCCC-CAAAACTTTTACTCCTCTCCC
41849036 A
1 A
41849037 TCCCACCCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.29
30 15 0.54
31 5 0.18
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (30 bp):
ACTTTCCCCCAAAACTTTTACTCCTCTCCC
Found at i:41858575 original size:22 final size:22
Alignment explanation
Indices: 41858550--41858592 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
41858540 TACACCAAAA
* * *
41858550 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAACGACGCTTTTT
41858572 TAGGCCTTTAACGACGCTTTT
1 TAGGCCTTTAACGACGCTTTT
41858593 ATTATAAACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.42
Consensus pattern (22 bp):
TAGGCCTTTAACGACGCTTTTT
Found at i:41858645 original size:43 final size:43
Alignment explanation
Indices: 41858598--41858860 Score: 239
Period size: 43 Copynumber: 6.1 Consensus size: 43
41858588 CTTTTATTAT
* *
41858598 AAACGCCGCTATAGACCATGACCTTTAGCGGTG-TTTTGTTGGA-
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTGCT--AC
* *
41858641 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTGCTAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTGCTAC
* * *
41858684 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCAAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTGCTAC
* * * * *
41858727 AAACGCCGCTATAGATCAGGATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTGCTAC
* * * * * *
41858770 AAACACCGCTATAG-CTGAAGACCTTTAGCGACGCTTTTACCAC
1 AAACGCCGCTATAGAC-CATGACCTTTAGCGGCGCTTTTGCTAC
* * * * * *
41858813 AAACACTGCTATAGAACA-AACCTTTAGCGACGCTTCTTGC-AA
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTT-TTGCTAC
41858855 AAACGC
1 AAACGC
41858861 ACTTAAAACA
Statistics
Matches: 189, Mismatches: 26, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
42 23 0.12
43 160 0.85
44 6 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTGCTAC
Found at i:41863824 original size:21 final size:20
Alignment explanation
Indices: 41863779--41863829 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
41863769 CGAATATCTA
*
41863779 AACCCTAAATCTCTAACTCTG
1 AACCCT-AATCTCAAACTCTG
41863800 AACCTCTAATCTCAAACTCAT-
1 AACC-CTAATCTCAAACTC-TG
41863821 AACCCTAAT
1 AACCCTAAT
41863830 TACCCCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.19
21 19 0.70
22 3 0.11
ACGTcount: A:0.37, C:0.33, G:0.02, T:0.27
Consensus pattern (20 bp):
AACCCTAATCTCAAACTCTG
Found at i:41864724 original size:41 final size:41
Alignment explanation
Indices: 41864665--41865071 Score: 564
Period size: 41 Copynumber: 9.9 Consensus size: 41
41864655 TTTTATTATT
* * **
41864665 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACTGGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
41864706 ATTAGCGGCGCTTCTTCAAAAAACGCAGCTAAAGACCGGAGC
1 ATTAGCGGCGCTTCTTC-AAAAACGCCGCTAAAGGCCCGAGC
* * *
41864748 ATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
41864789 ATTAGCAGCGCTTCGTCAAAAACGCCGCTAAAGGCCCGAGA
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
41864830 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCT-AAAGGCCCGAGC
* *
41864872 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCTAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
*
41864913 ATTAGCGGCGCTTCTTCACAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
41864954 ATTAGCGGCTCTTCGTCAAAAACGCTGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
41864995 ATTAGTGGCGCTTCGTCAAAAACGCAGCTAAAGGCGCC-AGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGC-CCGAGC
* *
41865036 ATTAGCGGCGCTTTTTCTAAAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
41865072 TCAAAAACTT
Statistics
Matches: 329, Mismatches: 34, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.00
41 249 0.76
42 79 0.24
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:41864885 original size:124 final size:122
Alignment explanation
Indices: 41864665--41865071 Score: 571
Period size: 124 Copynumber: 3.3 Consensus size: 122
41864655 TTTTATTATT
* * **
41864665 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACTGGAGCATTAGCGGCGCTTCTTCAAAAAAC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCTTC-AAAAAC
* * * *
41864730 GCAGCTAAAGACCGGAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGGCCAGAGC
65 GCAGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCC-CAGC
* * *
41864789 ATTAGCAGCGCTTCGTCAAAAACGCCGCTAAAGGCCCGAGAATTAGCGGCGCTTCTTCAAAAACG
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
*
41864854 CCGCTAAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCTAGC
66 CAGCT-AAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC-AGC
* * *
41864913 ATTAGCGGCGCTTCTTCACAAACGCCGCTAAAGGCCCGAGCATTAGCGGCTCTTCGTCAAAAACG
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
* * ** *
41864978 CTGCTAAAGGCCCGAGCATTAGTGGCGCTTCGTCAAAAACGCAGCTAAAGGCGCCAGC
66 CAGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGC-CCAGC
* *
41865036 ATTAGCGGCGCTTTTTCTAAAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
41865072 TCAAAAACTT
Statistics
Matches: 254, Mismatches: 26, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
123 90 0.35
124 164 0.65
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (122 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCTTCAAAAACG
CAGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCAGC
Found at i:41868329 original size:19 final size:19
Alignment explanation
Indices: 41868305--41868351 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
41868295 TAGAATATCT
41868305 ATAAGATTTATCTACCTAA
1 ATAAGATTTATCTACCTAA
*
41868324 ATAAGATTTATCTATCTAA
1 ATAAGATTTATCTACCTAA
41868343 ATAA-ATTTA
1 ATAAGATTTA
41868352 AAATATATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (19 bp):
ATAAGATTTATCTACCTAA
Done.